Hi Caroline,

Have you tried deleting the scipy installation and retrying from scratch?  You should be able to clean up most of the old scipy installations by repeatedly running "pip uninstall scipy".  If you're patient, you can also try the nuclear option of rerunning the install script from scratch.

-Nathan

On Mon, Jan 19, 2015 at 8:51 AM, Caroline Van Borm <borm@astro.rug.nl> wrote:
Hi all,

Thank you all for your suggestions! It turns out that iraf is installed on my work desktop and it somehow changes the F77 environment variable. After changing it back to /usr/bin/f77 I was able to install SciPy. However, when I now try to do 'from scipy.integrate import odeint' for example, I get the following error message:

In [2]: from scipy.interpolate import odeint
---------------------------------------------------------------------------
ImportError                               Traceback (most recent call last)
/data/users/borm/YT/yt-x86_64/src/yt-hg/scripts/iyt in <module>()
----> 1 from scipy.interpolate import odeint

/data/users/borm/YT/yt-x86_64/lib/python2.7/site-packages/scipy/interpolate/__init__.py in <module>()
    148 from __future__ import division, print_function, absolute_import
    149
--> 150 from .interpolate import *
    151 from .fitpack import *
    152

/data/users/borm/YT/yt-x86_64/lib/python2.7/site-packages/scipy/interpolate/interpolate.py in <module>()
     10                   dot, poly1d, asarray, intp
     11 import numpy as np
---> 12 import scipy.special as spec
     13 import math
     14

/data/users/borm/YT/yt-x86_64/lib/python2.7/site-packages/scipy/special/__init__.py in <module>()
    527 from __future__ import division, print_function, absolute_import
    528
--> 529 from ._ufuncs import *
    530 from ._ufuncs_cxx import *
    531

ImportError: /data/users/borm/YT/yt-x86_64/lib/python2.7/site-packages/scipy/special/_ufuncs.so: undefined symbol: s_stop

It seems this is again related to the compiler, but I'm not sure what to do about it. I have tried once more to set the NUMPY_ARGS to the different options in the install script, and also to install yt without SciPy and then install it using 'pip install scipy', but every time I get the same error. My OS is Scientific Linux 6, by the way.

Cheers,
Caroline




On 01/14/2015 05:32 PM, Peter Teuben wrote:
I suspect this is a side-effect of the iraf virus.  I too have often run into the f77 trojan that comes to light
in some (all?) iraf installations, and configure doesn't deal with it very well.


On 01/13/2015 12:10 PM, Caroline Van Borm wrote:
Dear yt users,

I'm having some trouble installing SciPy. I can install yt just fine using the install script, but if I turn the option for installing SciPy on, I get the following error:
creating build/temp.linux-x86_64-2.7/scipy/fftpack/src/dfftpack
compile options: '-I/data/users/borm/YT/yt-x86_64/lib/python2.7/site-packages/numpy/core/include -c'
f77.sh:f77: scipy/fftpack/src/dfftpack/dsint.f
Cannot open file dsint.f
gcc: dsint.c: No such file or directory
gcc: no input files
Cannot open file dsint.f
gcc: dsint.c: No such file or directory
gcc: no input files
error: Command "/iraf/iraf/unix/hlib//f77.sh -Wall -ffixed-form -fno-second-underscore -fPIC -O3 -funroll-loops -I/data/users/borm/YT/yt-x86_64/lib/python2.7/site-packages/numpy/core/include -c -c scipy/fftpack/src/dfftpack/dsint.f -o build/temp.linux-x86_64-2.7/scipy/fftpack/src/dfftpack/dsint.o" failed with exit status 1
I've tried uncommenting the NUMPY_ARGS lines one by one as suggested in the script, but none of that seems to work.
I'm using yt version 2.6.1, changeset e0906fc5b6d5, if that helps.

Any ideas on how to fix this? Thanks!

Cheers,
Caroline


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